What to know?

1. Basic R skills
2. Basic Unix/Linux skills

What to bring?

1. Bring laptop
2. A GitHub account?

Which R packages to install/load?

pkg <- c("ggplot2", "rmarkdown", "knitr", "dplyr");
lapply(pkg, function(x) { if (!require(x, character.only = TRUE, quietly = TRUE)) {
  install.packages(x);
  require(x, quietly = TRUE)}
})

What data to work with?

We will use the starwars dataset from dplyr.

head(starwars, n = 4);

## # A tibble: 4 x 13
##             name height  mass hair_color  skin_color eye_color birth_year
##            <chr>  <int> <dbl>      <chr>       <chr>     <chr>      <dbl>
## 1 Luke Skywalker    172    77      blond        fair      blue       19.0
## 2          C-3PO    167    75       <NA>        gold    yellow      112.0
## 3          R2-D2     96    32       <NA> white, blue       red       33.0
## 4    Darth Vader    202   136       none       white    yellow       41.9
## # ... with 6 more variables: gender <chr>, homeworld <chr>, species <chr>,
## #   films <list>, vehicles <list>, starships <list>

Create new R Markdown document in RStudio

1. File \(\rightarrow\) New File \(\rightarrow\) R Markdown

2. Specifiy output option

   

   Exercise: Create a new R Markdown document in RStudio

A note on different Markdown flavours: GitHub, R Markdown, vanilla Markdown, …

Focus here on R Markdown.

1. Headers
2. Emphasis: bold and italics
3. Lists: Ordered and unordered
4. Images and links
5. Blockquotes

…

1. Use ![](path/to/image.png)
2. Use HTML <img src="path/to/image.png" style="width:200px;">
3. Use knitr::include_graphics

1. Word
2. PDF
3. HTML

1. Title and subtitle
2. Author
3. Date
4. Output option

More details for every output option

1. Chunk options
2. Plot dimensions
3. Transparency

1. General: How to output tables/dataframes?
2. knitr::kable()
3. DT::datatable

suppressMessages(library(knitr));
kable(starwars[1:4, 1:4])

suppressMessages(library(DT));
#DT::datatable(starwars, options = list(dom = "ftp", scrollX = TRUE, pageLength = 4));
DT::datatable(starwars[, 1:4], options = list(pageLength = 8));

1. plotly
2. D3 in R

Load the necessary libraries:

suppressMessages(library(ggplot2));
suppressMessages(library(plotly));

## Warning: package 'plotly' was built under R version 3.4.1

suppressMessages(library(scatterD3));

ggplotly(ggplot(starwars, aes(x = height, y = mass, label = name)) + geom_point(), height = 5);

scatterD3(x = starwars$height, y = starwars$mass, lab = starwars$name);

R Markdown and shiny

…